DNA methylation and gene expression of HOX genes in the TCGA dataset. (A) Validation of the identified HOXA and HOXB DNA methylation and gene expression patterns. DMRs and genes are plotted in genomic 5′ to 3′ order from top to bottom. DNA methylation is indicated in blue (low) to yellow (high) and gene expression in green (low) to red (high). KDM6A, MLL, ML2, and MLL3 mutation status is indicated below (mutations in black). Within the HOXA heatmaps, the horizontal bars separate the anterior region from the posterior region (between the HOXA7 and HOXA9 promoters). (B) Association between promoter DMR methylation and gene expression for HOXA9. Samples are ordered as in (A). KDM6A mutations are indicated in red.